Delete Reaction

The Delete Reaction feature allows you to delete a certain reaction from the model.

Steps to delete a reaction

• Click the Delete Reaction Button on the toolbar
• Select a reaction/enzyme that is in Blue color

Important

Since the model that is being created has no flux calculated, all reactions have same flux hence same color.

How Delete Reaction works

Recommendation

It is highly advised to understand the difference between metabolite and reaction nodes. Notations Documentation

Before Deletion

Consider a custom model, where a metabolite is part of two reactions. The aim is to demonstrate the Delete Reaction feature. Lets say you want to delete Reaction - R2

graph LR
    A ---> R1
    B ---> R1
    R1 ---> C
    R1 ---> D
    C ---> R2 
    R2 ---> E

    %% Define styles
    classDef reaction fill:#4a90e2,stroke:#2c3e50,stroke-width:2px,rx:5px,ry:5px,color:#fff;
    classDef metabolite fill:#27ae60,stroke:#145a32,stroke-width:1.5px,color:#fff,stroke-dasharray:0;

    %% Assign classes
    class R1,R2,R3 reaction;
    class A,B,C,D,E,F,G metabolite;

Since metabolite C is part of both R1 and R2, deleting the reaction R2 will not delete metabolite C. Instead it only deletes nodes R2 and E.

After Deletion

graph LR
    A ---> R1
    B ---> R1
    R1 ---> C
    R1 ---> D


    %% Define styles
    classDef reaction fill:#4a90e2,stroke:#2c3e50,stroke-width:2px,rx:5px,ry:5px,color:#fff;
    classDef metabolite fill:#27ae60,stroke:#145a32,stroke-width:1.5px,color:#fff,stroke-dasharray:0;

    %% Assign classes
    class R1 reaction;
    class A,B,C,D metabolite;